An accessible GenePattern notebook for the copy number variation analysis of Illumina Infinium DNA methylation arrays.
F1000Res
; 72018.
Article
em En
| MEDLINE
| ID: mdl-31105932
ABSTRACT
Illumina Infinium DNA methylation arrays are a cost-effective technology to measure DNA methylation at CpG sites genome-wide and across cohorts of normal and cancer samples. While copy number alterations are commonly inferred from array-CGH, SNP arrays, or whole-genome DNA sequencing, Illumina Infinium DNA methylation arrays have been shown to detect copy number alterations at comparable sensitivity. Here we present an accessible, interactive GenePattern notebook for the analysis of copy number variation using Illumina Infinium DNA methylation arrays. The notebook provides a graphical user interface to a workflow using the R/Bioconductor packages minfi and conumee. The environment allows analysis to be performed without the installation of the R software environment, the packages and dependencies, and without the need to write or manipulate code.
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Texto completo:
1
Base de dados:
MEDLINE
Assunto principal:
Software
/
Metilação de DNA
/
Variações do Número de Cópias de DNA
Idioma:
En
Ano de publicação:
2018
Tipo de documento:
Article